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        If you use plots from MultiQC in a publication or presentation, please cite:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        Tool Citations

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        About MultiQC

        This report was generated using MultiQC, version 1.25.2

        You can see a YouTube video describing how to use MultiQC reports here: https://youtu.be/qPbIlO_KWN0

        For more information about MultiQC, including other videos and extensive documentation, please visit http://multiqc.info

        You can report bugs, suggest improvements and find the source code for MultiQC on GitHub: https://github.com/MultiQC/MultiQC

        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2025-05-22, 16:00 CEST based on data in: /home/aumoreno/Desktop/bam/final_github/bam_analysis_results

        Summary tables

        Parse information from bam_header_info.txt and genome_results.txt.

        BAM Header Info

        Basic metadata extracted from the BAM header

        Showing 0/1 rows and 7/7 columns.
        Sample NameParameterVersionSort OrderPlatformGenome Assembly IdentifierLibraryPrograms
        Value
        1.0
        coordinate
        ILLUMINA
        N/A
        2845856850
        GenomeAnalysisTK | bam_calculate_bq | bam_count_covariates | bam_mark_duplicates | bam_merge | bam_merge.1 | bam_realignment_around_known_indels | bam_recalibrate_quality_scores | bwa | bwa_aln_fastq | bwa_index | bwa_sam | gatk_target_interval_creator | picard | sam_to_fixed_bam | samtools

        Genome Results Summary

        General information from the BAM file

        Showing 0/1 rows and 11/11 columns.
        Sample NameNumber of readsNumber of mapped readsNumber of mapped paired reads (both in pair)Number of mapped paired reads (singletons)Number of duplicated readsMean insert sizeMean mapping quality% GCGeneral error rateMean coverageStd coverage
        145063589
        144534109
        143484556
        529412
        3351244
        21005.5861
        48.7
        40.2
        0.0
        4.4351X
        20.6409X

        Median coverage across reference

        {% include "code/templates/bam2.html" %}

        Genome Fraction Coverage

        Created with MultiQC

        Mapped Reads Clipping Profile

        Created with MultiQC

        Mapped Reads Nucleotide Content

        Created with MultiQC

        Homopolymer Indels

        Created with MultiQC

        Mapping Quality Histogram

        Created with MultiQC

        Insert Size Histogram

        Created with MultiQC

        RSeQC

        Evaluates high throughput RNA-seq data.URL: http://rseqc.sourceforge.netDOI: 10.1093/bioinformatics/bts356

        Read Distribution

        Read Distribution calculates how mapped reads are distributed over genome features.

        Created with MultiQC

        MultiQC v1.25.2 - Written by Phil Ewels, available on GitHub.

        This report uses Plotly, jQuery, jQuery UI, Bootstrap and FileSaver.js.